This script works with Python 3, it takes as input a VCF file and will use the SNP genotypes to create a matrix for phylogenetic analysis in the PHYLIP (relaxed version), FASTA, NEXUS, or binary NEXUS ...
java -jar /PATH/TO/stationxml-seed-converter-2.1.0.jar /PATH/TO/METADATA/File.extention java -jar PATH/TO/stationxml-seed-converter-2.1.0.jar --input /PATH/TO/StnXML ...
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